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    Ift122 intraflagellar transport 122 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 312651, updated on 9-Dec-2024

    Summary

    Official Symbol
    Ift122provided by RGD
    Official Full Name
    intraflagellar transport 122provided by RGD
    Primary source
    RGD:1311302
    See related
    EnsemblRapid:ENSRNOG00000010952 AllianceGenome:RGD:1311302
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Wdr10
    Summary
    Predicted to be involved in several processes, including cilium organization; embryonic morphogenesis; and protein localization to organelle. Predicted to act upstream of or within several processes, including embryonic morphogenesis; negative regulation of keratinocyte proliferation; and smoothened signaling pathway involved in dorsal/ventral neural tube patterning. Predicted to be located in several cellular components, including ciliary basal body; ciliary base; and photoreceptor connecting cilium. Predicted to be part of intraciliary transport particle A. Predicted to be active in non-motile cilium. Human ortholog(s) of this gene implicated in cranioectodermal dysplasia 1. Orthologous to human IFT122 (intraflagellar transport 122). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 165.6), Kidney (RPKM 89.2) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Ift122 in Genome Data Viewer
    Location:
    4q42
    Exon count:
    32
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (150577525..150648052)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (148905031..148975458)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (147756574..147826983)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene EF-hand calcium binding domain 12 Neighboring gene methyl-CpG binding domain 4 DNA glycosylase Neighboring gene rhodopsin Neighboring gene H1.8 linker histone

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    General gene information

    Markers

    Clone Names

    • MGC105616

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in camera-type eye morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cilium assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cilium assembly ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within dorsal/ventral pattern formation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in embryonic body morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within embryonic camera-type eye morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within embryonic digit morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in embryonic forelimb morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in embryonic heart tube development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in embryonic heart tube left/right pattern formation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in establishment of protein localization to organelle ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in intracellular signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in intraciliary anterograde transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in intraciliary retrograde transport IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in intraciliary retrograde transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in intraciliary transport ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of keratinocyte proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in limb development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within negative regulation of keratinocyte proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within negative regulation of smoothened signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of smoothened signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neural tube closure ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in non-motile cilium assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within non-motile cilium assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein localization to cilium IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within protein localization to cilium ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein localization to cilium ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within receptor clustering ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within smoothened signaling pathway involved in dorsal/ventral neural tube patterning ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in spinal cord dorsal/ventral patterning ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in ciliary basal body ISO
    Inferred from Sequence Orthology
    more info
     
    located_in ciliary base ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cilium ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    part_of intraciliary transport particle A IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of intraciliary transport particle A ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in non-motile cilium IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in photoreceptor connecting cilium ISO
    Inferred from Sequence Orthology
    more info
     
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    intraflagellar transport protein 122 homolog
    Names
    WD repeat domain 10
    intraflagellar transport 122 homolog

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001009416.2NP_001009416.1  intraflagellar transport protein 122 homolog isoform 2

      See identical proteins and their annotated locations for NP_001009416.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks several exons and its 3' terminal exon extends past a splice site that is used in variant 1. This results in a novel 3' coding region and 3' UTR, compared to variant 1. It encodes isoform 2 which is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A0A8J8XQ65, F1M7W3, Q5PPJ1
      Conserved Domains (3) summary
      COG2319
      Location:15289
      WD40; WD40 repeat [General function prediction only]
      sd00039
      Location:1551
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:49291
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    2. NM_001309521.1NP_001296450.1  intraflagellar transport protein 122 homolog isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A0A8I5ZMU0
      Related
      ENSRNOP00000086252.2, ENSRNOT00000112295.2
      Conserved Domains (5) summary
      COG2319
      Location:15289
      WD40; WD40 repeat [General function prediction only]
      cd15832
      Location:646701
      SNAP; TPR repeat [structural motif]
      sd00039
      Location:1551
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:49291
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      cl24038
      Location:641831
      SNAP; Soluble N-ethylmaleimide-sensitive factor (NSF) Attachment Protein family

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      150577525..150648052
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063286092.1XP_063142162.1  intraflagellar transport protein 122 homolog isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZMU0
    2. XM_039107640.2XP_038963568.1  intraflagellar transport protein 122 homolog isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZMU0
      Conserved Domains (3) summary
      TIGR02917
      Location:710953
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00039
      Location:1551
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:12190
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    3. XM_063286093.1XP_063142163.1  intraflagellar transport protein 122 homolog isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZMU0
    4. XM_006237067.4XP_006237129.1  intraflagellar transport protein 122 homolog isoform X4

      See identical proteins and their annotated locations for XP_006237129.1

      UniProtKB/TrEMBL
      A0A0G2JZL6, A0A8I5ZMU0, A6IL02
      Related
      ENSRNOP00000071095.1, ENSRNOT00000086549.3
      Conserved Domains (5) summary
      COG2319
      Location:4348
      WD40; WD40 repeat [General function prediction only]
      cd15832
      Location:705760
      SNAP; TPR repeat [structural motif]
      sd00039
      Location:1551
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:12190
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      cl24038
      Location:700890
      SNAP; Soluble N-ethylmaleimide-sensitive factor (NSF) Attachment Protein family
    5. XM_063286094.1XP_063142164.1  intraflagellar transport protein 122 homolog isoform X5

      UniProtKB/TrEMBL
      A0A8I5ZMU0
    6. XM_039107642.2XP_038963570.1  intraflagellar transport protein 122 homolog isoform X7

      UniProtKB/TrEMBL
      A0A8I5ZMU0, A0A8I6A5N4
      Conserved Domains (3) summary
      TIGR02917
      Location:651894
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00039
      Location:1551
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:49291
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    7. XM_063286095.1XP_063142165.1  intraflagellar transport protein 122 homolog isoform X6

      UniProtKB/TrEMBL
      A0A8I5ZMU0
      Related
      ENSRNOP00000014733.8, ENSRNOT00000014733.8
    8. XM_039107643.2XP_038963571.1  intraflagellar transport protein 122 homolog isoform X8

      UniProtKB/TrEMBL
      A0A8J8XQ65
      Conserved Domains (2) summary
      sd00039
      Location:1551
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:12190
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    RNA

    1. XR_005503231.2 RNA Sequence

    2. XR_010065648.1 RNA Sequence